BLASTP 2.2.18 [Mar-02-2008] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= 0002.0588.p (320 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313764|ref|YP_003777856.1| Fe2+-dicitrate sensor membrane ... 183 1e-47 gi|300309380|ref|YP_003773472.1| Fe2+-dicitrate sensor membrane ... 174 1e-44 gi|300311747|ref|YP_003775839.1| Fe2+-dicitrate sensor membrane ... 134 8e-33 gi|300312829|ref|YP_003776921.1| Fe2+-dicitrate sensor membrane ... 122 4e-29 gi|300313795|ref|YP_003777887.1| transmembrane sensor protein [H... 110 1e-25 >gi|300313764|ref|YP_003777856.1| Fe2+-dicitrate sensor membrane protein [Herbaspirillum seropedicae SmR1] Length = 326 Score = 183 bits (465), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 115/316 (36%), Positives = 163/316 (51%), Gaps = 12/316 (3%) Query: 1 VTIAIDWMVKLQSGAATEQEREACRRWRAEEARHELAWQRLQSLSERVSTLPS--ALTHG 58 +T A W++++ G R +WR HE AW R L E + LP A Sbjct: 16 LTEAATWLMEMHEGPLDAARRSKLAQWRQRSPEHERAWSRAALLQETFAALPPGGATALK 75 Query: 59 SIGDASNRHRHNRRFAVKSLCIALGVGLLAAGGNEIVPWRTLMADYATKAGERRRVTLAD 118 +G A RR A+K L AL +G + A AT GERR V L D Sbjct: 76 QVGPA------GRRKAIKLLAYALTLGPAGWLAYHALSGPEQGARIATAIGERREVQLDD 129 Query: 119 GTAVELNTATAIDAAYDEQSRLVRLHRGEVLITTAKEIDRAYRPFVVHTRLGQARALGTR 178 G+ + LNT T I + RL+RL RGE+++ TA + + RPF+V TR G R LGTR Sbjct: 130 GSRLWLNTDTRITLDFTPAQRLLRLQRGEIMVLTAPDRQQPPRPFLVATRQGSLRPLGTR 189 Query: 179 FQVRDSVAGMRIAVFEGTVEFKPAGTSGTNGAIRIDAGRQGLFDRQGLIGTLSQANEETV 238 F VR+ + +AV +G VE PA ++ + +G Q F R G ++ Sbjct: 190 FTVRERDQAVEVAVLQGAVEITPASSAQQT---VLPSGMQTRFTRSGSAAP-RPCDDTQA 245 Query: 239 AWTDGVIVADRMPLGELVAELDRSMPGKLRCDPAIASLTISGVFPLDQPARILAAIARTL 298 AW+ G+++A+RMPL + + EL R G L+ DPAIA L +SGVFPL R+L +A+TL Sbjct: 246 AWSRGLLIAERMPLAQFIGELGRYRSGLLQADPAIAGLEVSGVFPLADTDRVLRLLAQTL 305 Query: 299 PVQIDTVTSYWITLRP 314 PV++ +T YW+ + P Sbjct: 306 PVRVQQLTRYWVRVLP 321 >gi|300309380|ref|YP_003773472.1| Fe2+-dicitrate sensor membrane protein [Herbaspirillum seropedicae SmR1] Length = 336 Score = 174 bits (440), Expect = 1e-44, Method: Compositional matrix adjust. Identities = 108/306 (35%), Positives = 168/306 (54%), Gaps = 6/306 (1%) Query: 4 AIDWMVKLQSGAATEQEREACRRWRAEEARHELAWQRLQSLSERVSTLPSALTHGSIGDA 63 A++W+++LQ+ EA WR+ HE AW+R++S+ R+ L S + + ++ A Sbjct: 24 ALEWLLELQTQPLAPSTLEAWEAWRSAHPDHERAWRRIESVRGRLQALASPV-NAALAQA 82 Query: 64 SNRHRHNRRFAVKSLCIALGVGLLAAGGNEIVPWRTLMADYATKAGERRRVTLADGTAVE 123 + NRR +K+L + + G +A G PW+ AD T G++RR+ L DG+ + Sbjct: 83 ALTPSGNRRQVIKTLALLVFGGGVAWGLTRSEPWQQWRADLRTDIGQQRRLVLEDGSQLV 142 Query: 124 LNTATAIDAAYDEQSRLVRLHRGEVLITTAKEIDRAYRPFVVHTRLGQARALGTRFQVRD 183 LNT +A++ A+ + R +RL GE+L+TT K RPF+V T G A ALGTR+ VR Sbjct: 143 LNTHSAVNLAFSAEERRLRLISGELLVTTGKA--GGGRPFLVETAQGLAYALGTRYAVRQ 200 Query: 184 SVAGMRIAVFEGTVEFKPAGTSGTNGAIRIDAGRQGLFDRQGLIGTLSQANEETVAWTDG 243 ++V+EG V P A + AG+Q F QG +G ++ A+E +AWTDG Sbjct: 201 RAGRTEVSVWEGAVRLVP--RQAAQQARVLQAGQQAAFSAQG-VGDVTTADETRMAWTDG 257 Query: 244 VIVADRMPLGELVAELDRSMPGKLRCDPAIASLTISGVFPLDQPARILAAIARTLPVQID 303 VIVA M L +AEL R +L C PA++ + ISG +P+ ++A +A L +Q Sbjct: 258 VIVARGMRLDAFLAELGRYTTDRLSCAPAVSGVRISGSYPVADSDAVIATLAAALGLQAQ 317 Query: 304 TVTSYW 309 +W Sbjct: 318 LRQRFW 323 >gi|300311747|ref|YP_003775839.1| Fe2+-dicitrate sensor membrane protein [Herbaspirillum seropedicae SmR1] Length = 342 Score = 134 bits (338), Expect = 8e-33, Method: Compositional matrix adjust. Identities = 109/324 (33%), Positives = 167/324 (51%), Gaps = 22/324 (6%) Query: 4 AIDWMVKLQS---GAATEQEREA-CRRWRAEEARHELAWQRLQSLSERVSTL-----PSA 54 AI W+VKL++ AA E +A WRA + RHE W L + E+ L P++ Sbjct: 16 AIAWLVKLRAFPGDAAVAPELQAGIAAWRAADPRHEQVWSELMASEEQFQRLVALPVPAS 75 Query: 55 LTHGSIGDASNRHRHNRRFAVKSLCIALGVGLLAAGG---NEIVPWRTL-MADYATKAGE 110 HG + + R +H++ LG+G +A G + + L A YAT+ G+ Sbjct: 76 QWHGPLKRLNQRRQHSQSRRRWMGNAMLGLGAIALGAVAARQAGLFEALDGASYATRTGD 135 Query: 111 RRRVTLADGTAVELNTATAIDAAYDEQSRLVRLHRGEVLITTAKEIDRAY-RPFVVHTRL 169 +R++ L DGTA+ LNT++++ +D+ RL+ L +GE+ I T + + RPF V T Sbjct: 136 QRQLRLGDGTALALNTSSSVQLRFDDTRRLLLLRQGEIFIDTGADAQWPHHRPFWVQTAH 195 Query: 170 GQARALGTRFQVRDSVAGMRIAVFEGTVEFKPAGTS---GTNGAIRIDAGRQGLFDRQGL 226 + +ALGTRF VR G ++ V EG V AG G I +D G R+ Sbjct: 196 ARLQALGTRFDVRQHGDGTQLTVLEGRVAVHVAGVDPLVAQPGEI-VDIHPDGRLVRRA- 253 Query: 227 IGTLSQANEETVAWTDGVIVADRMPLGELVAELDRSMPGKLRCDPAIASLTISGVFPLDQ 286 + A + T AW + +V +M L ++VA+L R G L+CDPA+A +SGVF L Sbjct: 254 --ARASAMDPT-AWLEQSLVVRQMRLADVVAQLARYRSGWLQCDPAVADWQVSGVFQLQD 310 Query: 287 PARILAAIARTLPVQIDTVTSYWI 310 L A+A+ LP+ I+ T +W+ Sbjct: 311 TDVALEALAQALPLTIERRTRFWV 334 >gi|300312829|ref|YP_003776921.1| Fe2+-dicitrate sensor membrane protein [Herbaspirillum seropedicae SmR1] Length = 316 Score = 122 bits (306), Expect = 4e-29, Method: Compositional matrix adjust. Identities = 104/324 (32%), Positives = 156/324 (48%), Gaps = 23/324 (7%) Query: 1 VTIAIDWMVKLQSGAATEQEREACRRWRAEEARHELAWQRL-QSLSE-----RVSTLPSA 54 V AI+WM++L+ G ER A +W+A + RH +A+ L QS+ + +V P Sbjct: 8 VEQAIEWMLQLEQGDLPPGERAAFEQWKAADPRHAMAYANLSQSVQQFDVPRQVGAAPVI 67 Query: 55 LTHGSIGDASNRHRHNRRFAVKSLCIALGVGLLAAGG-NEIVPWRTLMADYATKAGERRR 113 L + + + + RR A+K + G+ + AA + + P L AD T G+R+R Sbjct: 68 LRN------TLQQKSKRRKALKRIAALAGLAVGAAALLDRVTPVAALTADLHTGTGQRQR 121 Query: 114 VTLADGTAVELNTATAIDAAYDEQSRLVRLHRGEVLITTAKEIDRAYRPFVVHTRLGQAR 173 TLADG+ + LN +AID R VRL GE+ + A PF + T G Sbjct: 122 TTLADGSIITLNARSAIDHLISPVLRQVRLLEGEIQVQIAAA---NALPFSIETVHGSVS 178 Query: 174 ALGTRFQVRDSVAGMRIAVFEGTVEFKPAGTSGTNGA-IRIDAGRQGLFDRQGLIGTLSQ 232 A + G++ + + A S NG + AG++ FD Q IG Sbjct: 179 ATAGTLML-----GLQPLRTDLVAQQAAALLSTRNGQHATLAAGQRTWFD-QDEIGAPRA 232 Query: 233 ANEETVAWTDGVIVADRMPLGELVAELDRSMPGKLRCDPAIASLTISGVFPLDQPARILA 292 A +W +G A L E+VA L G LR DPA+A L ISG FPLD R L+ Sbjct: 233 AGGAENSWVEGYYTASDNSLEEVVAALRPYRKGLLRLDPAVAQLRISGAFPLDDTDRALS 292 Query: 293 AIARTLPVQIDTVTSYWITLRPRA 316 A+A LP+ ++ V+ YW+++ R+ Sbjct: 293 ALASALPITVNRVSPYWVSISGRS 316 >gi|300313795|ref|YP_003777887.1| transmembrane sensor protein [Herbaspirillum seropedicae SmR1] Length = 342 Score = 110 bits (276), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 107/328 (32%), Positives = 164/328 (50%), Gaps = 21/328 (6%) Query: 3 IAIDWMVKLQSG--AATEQEREACRRWRAEEARHELAWQRLQSLSERVSTL-------PS 53 +A DW+V+L +G A ++ A RW+ + +H A + LQ + L PS Sbjct: 18 MAADWIVRLSAGDAAQQQETAAAFARWQGQSRQHAQAARELQGVLAHCEGLLHSAQGDPS 77 Query: 54 ALTHGSIGDASNRHRHNR-RFAVKSLCIALGVGLLAAGGNEIVPWRTLMADYATKAGERR 112 L G + R R R AV +L +A +GL G + P R L+AD T G Sbjct: 78 PLLAGLEAAMAPSPRPGRGRRAVAALALACCIGLPLWLGLQAYPARYLLADMRTATGHWD 137 Query: 113 RVTLADGTAVELNTATAIDAAYDEQSRLVRLHRGEVLITTAKEIDRAYRPFVVHTRLGQA 172 TLADG+ + L+ ++A + +D Q R V L +GE+L+ A++ RPFV+ T G Sbjct: 138 ARTLADGSRLLLSGSSAANFHFDAQRRTVELVQGELLVEVARD---PARPFVIQTADGSI 194 Query: 173 RALGTRFQVRDSVAGMRIAVFEGTVEFKPAGTSGTNGAIRIDAGRQGLFDRQGLIGTLSQ 232 RALGTRF VR AG +++ E V +P G T + ++AG Q + G G L Sbjct: 195 RALGTRFLVRRDRAGTLVSMLESKVSIQP-GADTTQAPLVLEAG-QRVRLHGGAAGPLEH 252 Query: 233 ANEETV--AWTDGVIVADRMPLGELVAELDRSMPGKLRCDPA-IASLTISGVFPLDQPAR 289 + + AW +V++ PL E++ EL+R PG++ D A +A L ++ V PLD R Sbjct: 253 IDAAALERAWRRHQLVSNARPLTEVLDELNRHRPGRILYDQAQLAGLHMTVVLPLDDTQR 312 Query: 290 ILAAIARTLP-VQIDTVTSY--WITLRP 314 L + +P +++ T Y +I L P Sbjct: 313 ALQLLVDGVPGLRVRQFTPYLTYIDLAP 340 Database: BlastDatabases/689/689 Posted date: Apr 10, 2011 12:15 AM Number of letters in database: 1,619,870 Number of sequences in database: 4735 Lambda K H 0.320 0.133 0.390 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 4735 Number of Hits to DB: 883,449 Number of extensions: 33851 Number of successful extensions: 134 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 122 Number of HSP's successfully gapped: 6 Length of query: 320 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 235 Effective length of database: 1,217,395 Effective search space: 286087825 Effective search space used: 286087825 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 130 (54.7 bits)